

Hi
I want to du a sensitivity analysis using Latin Hypercubes. But my
parameters have to fulfill two conditions:
1) ranging from 0 to 1
2) have to sum up to 1
So far I am using the lhs package and am doing the following:
library(lhs)
ws < improvedLHS(1000, 7)
wsSums < rowSums(ws)
wss < ws / wsSums
but I think I can't do that, as after the normalization
> min(wss)
[1] 0.0001113015
> max(wss)
[1] 0.5095729
Therefore my question: how can I create a Latin Hypercube whicgh
fulfills the conditions 1) and 2)?
Thanks a lot
Rainer

Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation
Biology, UCT), Dipl. Phys. (Germany)
Centre of Excellence for Invasion Biology
Faculty of Science
Natural Sciences Building
Private Bag X1
University of Stellenbosch
Matieland 7602
South Africa
______________________________________________
[hidden email] mailing list
https://stat.ethz.ch/mailman/listinfo/rhelpPLEASE do read the posting guide http://www.Rproject.org/postingguide.htmland provide commented, minimal, selfcontained, reproducible code.


Rainer M Krug <r.m.krug <at> gmail.com> writes:
>
> Hi
>
> I want to du a sensitivity analysis using Latin Hypercubes. But my
> parameters have to fulfill two conditions:
>
> 1) ranging from 0 to 1
> 2) have to sum up to 1
>
Perhaps I'm missing something, but it seems that there's
only one vector that satisfies these two conditions simultaneously,
which is x={0,1} ... ??? (Actually, technically speaking
you could have as many zeros as you wanted  x = {0,0,0,1}
would also work  but I don't think that's going to help much.)
If min(x)=0 and max(x)=1, then x must contain 0 and 1. If x
contains any other nonzero values, and no negative
ones, then sum(x)>1 ...
You seem to have a problem either in your definitions,
or in your communication of those definitions to us ...
cheers
Ben Bolker
______________________________________________
[hidden email] mailing list
https://stat.ethz.ch/mailman/listinfo/rhelpPLEASE do read the posting guide http://www.Rproject.org/postingguide.htmland provide commented, minimal, selfcontained, reproducible code.


On Sun, Nov 23, 2008 at 7:43 PM, Ben Bolker < [hidden email]> wrote:
> Rainer M Krug <r.m.krug <at> gmail.com> writes:
>
>>
>> Hi
>>
>> I want to du a sensitivity analysis using Latin Hypercubes. But my
>> parameters have to fulfill two conditions:
>>
>> 1) ranging from 0 to 1
>> 2) have to sum up to 1
>>
>
> Perhaps I'm missing something, but it seems that there's
> only one vector that satisfies these two conditions simultaneously,
> which is x={0,1} ... ??? (Actually, technically speaking
> you could have as many zeros as you wanted  x = {0,0,0,1}
> would also work  but I don't think that's going to help much.)
> If min(x)=0 and max(x)=1, then x must contain 0 and 1. If x
> contains any other nonzero values, and no negative
> ones, then sum(x)>1 ...
You are absolutely right  but when you look at the example, I want
that the FINAL latin hypercube sets sum up to one, and the values
RANGING from 0 to 1, i.e. (0.5, 0.5) would also satisfy the condition.
>
> You seem to have a problem either in your definitions,
> or in your communication of those definitions to us ...
Probably both  but to try again:
1) values ranging between 0 and 1 (0 <= x <= 1)
2) all elements in one set of the lLatin Hypercube should add to one.
Assuming two dimensions, (1,0) & (0,1) & (0.3, 0.7) , ... would all
satisfy the condition 1 and 2;
(0.8, 0.3) would satisfy 1, but not 2;
(1, 2) would satisfy 2, but not 1
Hope this clarifies my question,
Rainer

Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation
Biology, UCT), Dipl. Phys. (Germany)
Centre of Excellence for Invasion Biology
Faculty of Science
Natural Sciences Building
Private Bag X1
University of Stellenbosch
Matieland 7602
South Africa
______________________________________________
[hidden email] mailing list
https://stat.ethz.ch/mailman/listinfo/rhelpPLEASE do read the posting guide http://www.Rproject.org/postingguide.htmland provide commented, minimal, selfcontained, reproducible code.


In that case won't
x2 < (xmin(x))/(max(x)min(x)) ## establishes criterion 1
x3 < x2/sum(x2) ## establishes criterion 2
work? I haven't thought about this very carefully, but
since transformation makes min(x)=0 and max(x)=1 (and therefore
sum(x)>1  although it won't work if length(x)<2 or var(x)==0)
transformation 2 will necessarily reduce the range and therefore
not violate criterion 1 ... ?
Ben Bolker
Rainer M Krug wrote:
> On Sun, Nov 23, 2008 at 7:43 PM, Ben Bolker < [hidden email]> wrote:
>> Rainer M Krug <r.m.krug <at> gmail.com> writes:
>>
>>> Hi
>>>
>>> I want to du a sensitivity analysis using Latin Hypercubes. But my
>>> parameters have to fulfill two conditions:
>>>
>>> 1) ranging from 0 to 1
>>> 2) have to sum up to 1
>>>
>> Perhaps I'm missing something, but it seems that there's
>> only one vector that satisfies these two conditions simultaneously,
>> which is x={0,1} ... ??? (Actually, technically speaking
>> you could have as many zeros as you wanted  x = {0,0,0,1}
>> would also work  but I don't think that's going to help much.)
>> If min(x)=0 and max(x)=1, then x must contain 0 and 1. If x
>> contains any other nonzero values, and no negative
>> ones, then sum(x)>1 ...
>
> You are absolutely right  but when you look at the example, I want
> that the FINAL latin hypercube sets sum up to one, and the values
> RANGING from 0 to 1, i.e. (0.5, 0.5) would also satisfy the condition.
>
>> You seem to have a problem either in your definitions,
>> or in your communication of those definitions to us ...
>
> Probably both  but to try again:
>
> 1) values ranging between 0 and 1 (0 <= x <= 1)
> 2) all elements in one set of the lLatin Hypercube should add to one.
>
> Assuming two dimensions, (1,0) & (0,1) & (0.3, 0.7) , ... would all
> satisfy the condition 1 and 2;
>
> (0.8, 0.3) would satisfy 1, but not 2;
> (1, 2) would satisfy 2, but not 1
>
> Hope this clarifies my question,
>
> Rainer
>
>> cheers
>> Ben Bolker
>>
>> ______________________________________________
>> [hidden email] mailing list
>> https://stat.ethz.ch/mailman/listinfo/rhelp>> PLEASE do read the posting guide http://www.Rproject.org/postingguide.html>> and provide commented, minimal, selfcontained, reproducible code.
>>
>
>
>

Ben Bolker
Associate professor, Biology Dep't, Univ. of Florida
[hidden email] / www.zoology.ufl.edu/bolker
GPG key: www.zoology.ufl.edu/bolker/benbolkerpublickey.asc
______________________________________________
[hidden email] mailing list
https://stat.ethz.ch/mailman/listinfo/rhelpPLEASE do read the posting guide http://www.Rproject.org/postingguide.htmland provide commented, minimal, selfcontained, reproducible code.


On Sun, Nov 23, 2008 at 8:06 PM, Ben Bolker < [hidden email]> wrote:
> In that case won't
>
> x2 < (xmin(x))/(max(x)min(x)) ## establishes criterion 1
That one is not needed, as the range is automatically between 0 and 1:
min(ws)
[1] 6.925322e05
> max(ws)
[1] 0.9999284
so that is fine.
but when I do the normalization, i.e. the sum of each row has to be 1:
wss < ws / rowSums(ws)
the min and max change to:
> min(wss)
[1] 0.0003943225
> max(wss)
[1] 0.4834845
But there is also the possibility, that one value ws[n,1] is larger
then one (or one), and the others are zero (or sum(ws[n,1] ==
1ws[n,1]), e.g. (1,0,0,0,0,0,0).
In addition, I think that the resulting cube is not a Latin Hypercube any more.
> x3 < x2/sum(x2) ## establishes criterion 2
>
> work? I haven't thought about this very carefully, but
> since transformation makes min(x)=0 and max(x)=1 (and therefore
> sum(x)>1  although it won't work if length(x)<2 or var(x)==0)
> transformation 2 will necessarily reduce the range and therefore
> not violate criterion 1 ... ?
>
> Ben Bolker
>
>
> Rainer M Krug wrote:
>> On Sun, Nov 23, 2008 at 7:43 PM, Ben Bolker < [hidden email]> wrote:
>>> Rainer M Krug <r.m.krug <at> gmail.com> writes:
>>>
>>>> Hi
>>>>
>>>> I want to du a sensitivity analysis using Latin Hypercubes. But my
>>>> parameters have to fulfill two conditions:
>>>>
>>>> 1) ranging from 0 to 1
>>>> 2) have to sum up to 1
>>>>
>>> Perhaps I'm missing something, but it seems that there's
>>> only one vector that satisfies these two conditions simultaneously,
>>> which is x={0,1} ... ??? (Actually, technically speaking
>>> you could have as many zeros as you wanted  x = {0,0,0,1}
>>> would also work  but I don't think that's going to help much.)
>>> If min(x)=0 and max(x)=1, then x must contain 0 and 1. If x
>>> contains any other nonzero values, and no negative
>>> ones, then sum(x)>1 ...
>>
>> You are absolutely right  but when you look at the example, I want
>> that the FINAL latin hypercube sets sum up to one, and the values
>> RANGING from 0 to 1, i.e. (0.5, 0.5) would also satisfy the condition.
>>
>>> You seem to have a problem either in your definitions,
>>> or in your communication of those definitions to us ...
>>
>> Probably both  but to try again:
>>
>> 1) values ranging between 0 and 1 (0 <= x <= 1)
>> 2) all elements in one set of the lLatin Hypercube should add to one.
>>
>> Assuming two dimensions, (1,0) & (0,1) & (0.3, 0.7) , ... would all
>> satisfy the condition 1 and 2;
>>
>> (0.8, 0.3) would satisfy 1, but not 2;
>> (1, 2) would satisfy 2, but not 1
>>
>> Hope this clarifies my question,
>>
>> Rainer
>>
>>> cheers
>>> Ben Bolker
>>>
>>> ______________________________________________
>>> [hidden email] mailing list
>>> https://stat.ethz.ch/mailman/listinfo/rhelp>>> PLEASE do read the posting guide http://www.Rproject.org/postingguide.html>>> and provide commented, minimal, selfcontained, reproducible code.
>>>
>>
>>
>>
>
>
> 
> Ben Bolker
> Associate professor, Biology Dep't, Univ. of Florida
> [hidden email] / www.zoology.ufl.edu/bolker
> GPG key: www.zoology.ufl.edu/bolker/benbolkerpublickey.asc
>

Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation
Biology, UCT), Dipl. Phys. (Germany)
Centre of Excellence for Invasion Biology
Faculty of Science
Natural Sciences Building
Private Bag X1
University of Stellenbosch
Matieland 7602
South Africa
______________________________________________
[hidden email] mailing list
https://stat.ethz.ch/mailman/listinfo/rhelpPLEASE do read the posting guide http://www.Rproject.org/postingguide.htmland provide commented, minimal, selfcontained, reproducible code.


Rainer M Krug <r.m.krug <at> gmail.com> writes:
>
> Hi
>
> I want to du a sensitivity analysis using Latin Hypercubes. But my
> parameters have to fulfill two conditions:
>
> 1) ranging from 0 to 1
> 2) have to sum up to 1
>
> So far I am using the lhs package and am doing the following:
>
> library(lhs)
> ws < improvedLHS(1000, 7)
> wsSums < rowSums(ws)
> wss < ws / wsSums
>
> but I think I can't do that, as after the normalization
>
> > min(wss)
> [1] 0.0001113015
> > max(wss)
> [1] 0.5095729
>
> Therefore my question: how can I create a Latin Hypercube whicgh
> fulfills the conditions 1) and 2)?
>
> Thanks a lot
>
> Rainer
>
Rainer,
Your original solution meets your two conditions. The problem for you (I
think) is that you'd like the result to have values near zero and near one.
I have an imperfect solution to your problem using a Dirichlet distribution.
The Dirichlet seems to keep the range of the values larger once they are
normalized. The result is not uniformly distributed on (0,1) anymore, but
instead is Dirichlet distributed with the parameters alpha. The Latin
properties are maintained.
require(lhs)
qdirichlet < function(X, alpha)
{
# qdirichlet is not an exact quantile function since the quantile of a
# multivariate distribtion is not unique
# qdirichlet is also not the quantiles of the marginal distributions since
# those quantiles do not sum to one
# qdirichlet is the quantile of the underlying gamma functions, normalized
# This has been tested to show that qdirichlet approximates the dirichlet
# distribution well and creates the correct marginal means and variances
# when using a latin hypercube sample
lena < length(alpha)
stopifnot(is.matrix(X))
sims < dim(X)[1]
stopifnot(dim(X)[2] == lena)
if(any(is.na(alpha))  any(is.na(X)))
stop("NA values not allowed in qdirichlet")
Y < matrix(0, nrow=sims, ncol=lena)
ind < which(alpha != 0)
for(i in ind)
{
Y[,i] < qgamma(X[,i], alpha[i], 1)
}
Y < Y / rowSums(Y)
return(Y)
}
X < randomLHS(1000, 7)
Y < qdirichlet(X, rep(1,7))
stopifnot(all(abs(rowSums(Y)1) < 1E12))
range(Y)
ws < randomLHS(1000, 7)
wsSums < rowSums(ws)
wss < ws / wsSums
stopifnot(all(abs(rowSums(wss)1) < 1E12))
range(wss)
I hope this helps!
Rob
Rob Carnell
Battelle
Principal Research Scientist
______________________________________________
[hidden email] mailing list
https://stat.ethz.ch/mailman/listinfo/rhelpPLEASE do read the posting guide http://www.Rproject.org/postingguide.htmland provide commented, minimal, selfcontained, reproducible code.


On Tue, Nov 25, 2008 at 4:16 PM, Rob Carnell < [hidden email]> wrote:
> Rainer M Krug <r.m.krug <at> gmail.com> writes:
>
>>
>> Hi
>>
>> I want to du a sensitivity analysis using Latin Hypercubes. But my
>> parameters have to fulfill two conditions:
>>
>> 1) ranging from 0 to 1
>> 2) have to sum up to 1
>>
>> So far I am using the lhs package and am doing the following:
>>
>> library(lhs)
>> ws < improvedLHS(1000, 7)
>> wsSums < rowSums(ws)
>> wss < ws / wsSums
>>
>> but I think I can't do that, as after the normalization
>>
>> > min(wss)
>> [1] 0.0001113015
>> > max(wss)
>> [1] 0.5095729
>>
>> Therefore my question: how can I create a Latin Hypercube whicgh
>> fulfills the conditions 1) and 2)?
>>
>> Thanks a lot
>>
>> Rainer
>>
>
> Rainer,
>
> Your original solution meets your two conditions. The problem for you (I
> think) is that you'd like the result to have values near zero and near one.
>
> I have an imperfect solution to your problem using a Dirichlet distribution.
> The Dirichlet seems to keep the range of the values larger once they are
> normalized. The result is not uniformly distributed on (0,1) anymore, but
> instead is Dirichlet distributed with the parameters alpha. The Latin
> properties are maintained.
Thanks a lot Rob.
I'll look into the solution which sounds good.
Thanks
Rainer
>
> require(lhs)
>
> qdirichlet < function(X, alpha)
> {
> # qdirichlet is not an exact quantile function since the quantile of a
> # multivariate distribtion is not unique
> # qdirichlet is also not the quantiles of the marginal distributions since
> # those quantiles do not sum to one
> # qdirichlet is the quantile of the underlying gamma functions, normalized
> # This has been tested to show that qdirichlet approximates the dirichlet
> # distribution well and creates the correct marginal means and variances
> # when using a latin hypercube sample
> lena < length(alpha)
> stopifnot(is.matrix(X))
> sims < dim(X)[1]
> stopifnot(dim(X)[2] == lena)
> if(any(is.na(alpha))  any(is.na(X)))
> stop("NA values not allowed in qdirichlet")
>
> Y < matrix(0, nrow=sims, ncol=lena)
> ind < which(alpha != 0)
> for(i in ind)
> {
> Y[,i] < qgamma(X[,i], alpha[i], 1)
> }
> Y < Y / rowSums(Y)
> return(Y)
> }
>
> X < randomLHS(1000, 7)
> Y < qdirichlet(X, rep(1,7))
> stopifnot(all(abs(rowSums(Y)1) < 1E12))
> range(Y)
>
> ws < randomLHS(1000, 7)
> wsSums < rowSums(ws)
> wss < ws / wsSums
> stopifnot(all(abs(rowSums(wss)1) < 1E12))
> range(wss)
>
> I hope this helps!
> Rob
>
> Rob Carnell
> Battelle
> Principal Research Scientist
>
> ______________________________________________
> [hidden email] mailing list
> https://stat.ethz.ch/mailman/listinfo/rhelp> PLEASE do read the posting guide http://www.Rproject.org/postingguide.html> and provide commented, minimal, selfcontained, reproducible code.
>

Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation
Biology, UCT), Dipl. Phys. (Germany)
Centre of Excellence for Invasion Biology
Faculty of Science
Natural Sciences Building
Private Bag X1
University of Stellenbosch
Matieland 7602
South Africa
______________________________________________
[hidden email] mailing list
https://stat.ethz.ch/mailman/listinfo/rhelpPLEASE do read the posting guide http://www.Rproject.org/postingguide.htmland provide commented, minimal, selfcontained, reproducible code.

